# List of top-scoring protein chains for t06-100-40-40-str2+CB_burial_14_7-scores hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 2fj6A 82 5.69e-02 1exrA 148 2.11e-01 1cll a.39.1.5 17299 2ahqA 76 2.33e-01 1fseA 74 2.43e-01 1fseA a.4.6.2 60000 2a2pA 129 2.96e-01 1zg2A 107 3.74e-01 1zo0A 126 4.04e-01 1uujA 88 4.45e-01 a.221.1.1 108046 1hulA 108 5.29e-01 1hulA a.26.1.2 16865 1nrjA 158 5.96e-01 d.110.4.4 86124 1wxcB 134 9.95e-01 1z5bA 469 1.12e+00 1sjiA 350 1.14e+00 2a3qA 170 1.35e+00 1xteA 154 1.46e+00 2h88C 140 1.69e+00 1ov2A 99 1.70e+00 a.13.1.1 93580 1uyrA 737 1.75e+00 c.14.1.4,c.14.1.4 100188,100189 1sx7A 164 1.77e+00 1yirA 408 1.77e+00 1nu0A 138 1.88e+00 c.55.3.8 92165 1r1qA 100 1.92e+00 d.93.1.1 104763 2f3yA 148 2.13e+00 1xppA 115 2.22e+00 1a8y 367 2.23e+00 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1h2kA 349 2.26e+00 b.82.2.6 76572 1t17A 148 2.70e+00 1fjlA 81 2.70e+00 2hddA a.4.1.1 16017 2fa8A 105 2.76e+00 1wmhA 89 2.83e+00 2fbwC 141 2.88e+00 1xdfA 157 2.98e+00 1vhxA 150 2.98e+00 c.55.3.8 100712 1m3qA 317 3.67e+00 a.96.1.3,d.129.1.2 91184,91185 1ywmA 200 3.68e+00 2hddA 61 3.96e+00 2hddA a.4.1.1 15971 1n00A 321 4.07e+00 a.65.1.1 85241 1lu4A 136 4.08e+00 c.47.1.10 91124 1w33A 181 4.24e+00 2g0uA 92 4.52e+00 1jggA 60 4.95e+00 2hddA a.4.1.1 62950 1j2mA 99 4.96e+00 a.165.1.1 84018 1z6oM 191 5.06e+00 1xqaA 113 5.12e+00 1ztpA 251 5.40e+00 1ggzA 148 5.85e+00 a.39.1.5 70176 2d7vA 162 6.02e+00 1pzlA 237 6.22e+00 a.123.1.1 104393 2g7uA 257 6.30e+00 2gpiA 91 6.70e+00 2gupA 292 6.77e+00 1jyoE 105 6.85e+00 d.184.1.2 67487 1td6A 306 6.88e+00 1tkeA 224 6.89e+00 1lkkA 105 6.89e+00 1lckA d.93.1.1 40412 1fipA 98 7.02e+00 1fipA a.4.1.12 18980 1dkzA 219 7.08e+00 1dkzA a.8.4.1,b.130.1.1 90345,90346 1v54E 109 7.08e+00 a.118.11.1 100326 2bfdA 400 7.10e+00 1xn5A 146 7.19e+00 1go4A 205 7.31e+00 d.135.1.1 70292 1a41 234 7.46e+00 1a41 d.163.1.2 42174 1on2A 142 7.59e+00 a.4.5.24,a.76.1.1 87103,87104 2ciaA 102 7.68e+00 1kq6A 141 7.70e+00 d.189.1.1 91020 1q1vA 70 7.70e+00 a.159.4.1 104479 2ffsA 157 7.83e+00 1vbvA 105 8.02e+00 1fjgP 88 8.12e+00 1emwA d.27.1.1 38444 1llmC 88 8.72e+00 g.37.1.1,g.37.1.1 91059,91060 1t8tA 271 8.84e+00 c.37.1.5 106685 1xc3A 302 9.11e+00 1yfuA 174 9.24e+00 1x7yA 400 9.30e+00 1wdcC 156 9.57e+00 1wdcC a.39.1.5 17317 2et1A 201 9.85e+00 2cyeA 133 1.01e+01 1u7kA 131 1.08e+01 1yrtA 364 1.09e+01 1dozA 309 1.09e+01 1ak1 c.92.1.1 35592 1aj8A 371 1.09e+01 1aj8A a.103.1.1 18900 1ii7A 333 1.11e+01 1ii7A d.159.1.4 62415 2c60A 111 1.14e+01 2f7fA 494 1.15e+01 1mn8A 100 1.15e+01 a.61.1.6 79318 1nn5A 215 1.18e+01 c.37.1.1 85892 2ci9A 102 1.21e+01 1swvA 267 1.21e+01 1wi6A 88 1.22e+01 1w9cA 321 1.22e+01 1fi2A 201 1.25e+01 1fi2A b.82.1.2 59845 1xk7A 408 1.27e+01 1t7vA 278 1.27e+01 1zbqA 327 1.29e+01 1z2mA 155 1.31e+01 2ftxA 90 1.39e+01 1a8o 70 1.39e+01 1a8o a.28.3.1 16953 1nvvS 481 1.39e+01 a.117.1.1 86279 1w6sB 74 1.42e+01 1y6xA 93 1.44e+01 2c5rA 67 1.50e+01 2arzA 247 1.52e+01 1h97A 147 1.54e+01 1h97A a.1.1.2 60812 1jyrA 96 1.54e+01 d.93.1.1 71969 2gp5A 349 1.55e+01 1v98A 140 1.55e+01 1ip9A 85 1.57e+01 1ip9A d.15.2.2 62638 1f2tA 149 1.57e+01 1f2tA c.37.1.12 32373 2glzA 153 1.58e+01 1amuA 563 1.58e+01 1amuA e.23.1.1 43351 1wwuA 99 1.59e+01 1o26A 232 1.62e+01 d.207.1.1 86566 1u5dA 108 1.64e+01 1ywxA 102 1.65e+01 1d4tA 104 1.68e+01 1d4tA d.93.1.1 40537 2ajrA 331 1.69e+01 1v4pA 157 1.70e+01 1h6hA 143 1.70e+01 d.189.1.1 65681 1dp3A 55 1.76e+01 1dp3A a.55.1.2 59128 1lvfA 110 1.78e+01 a.47.2.1 74280 1r45A 204 1.84e+01 3nul 130 1.86e+01 3nul d.110.1.1 40891 1s4kA 120 1.95e+01 a.35.1.6 105254 2db9A 149 1.95e+01 1rloA 271 1.96e+01 1hs7A 97 2.01e+01 1hs7A a.47.2.1 61236 1upqA 123 2.02e+01 1t6cA 315 2.02e+01 c.55.1.8,c.55.1.8 106558,106559 1z8uA 102 2.03e+01 1k61A 60 2.07e+01 a.4.1.1 77270 1dm9A 133 2.14e+01 1dm9A d.66.1.3 39560 1u69A 163 2.17e+01 d.32.1.7 107699 1l6rA 227 2.18e+01 c.108.1.10 77768 1t3uA 104 2.20e+01 d.244.1.1 99120 1ucpA 91 2.21e+01 a.77.1.5 99186 1ub1A 133 2.21e+01 d.10.1.3 99140 1lngA 87 2.23e+01 d.201.1.1 74045 1r6fA 310 2.24e+01 e.46.1.1 97149 1yvhA 329 2.25e+01 1v2zA 111 2.29e+01 a.186.1.1 108300 1up7A 417 2.31e+01 2a65A 519 2.35e+01 2fi9A 128 2.40e+01 1sxvA 172 2.41e+01 1e0bA 68 2.49e+01 1e0bA b.34.13.2 37476 2f9dA 125 2.51e+01 1jl5A 454 2.52e+01 c.10.2.6 66830 1fxlA 167 2.53e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 2fu2A 102 2.55e+01 1gs9A 165 2.57e+01 a.24.1.1 83313 1ayaA 101 2.58e+01 1qadA d.93.1.1 40460 1g73C 121 2.59e+01 1g3fA g.52.1.1 45375 1hynP 379 2.61e+01 1hynP d.112.1.2 61408 1wi0A 113 2.71e+01 1ig5A 75 2.75e+01 4icb a.39.1.1 62363 1nkpB 83 2.76e+01 a.38.1.1 80574 2lhb 149 2.76e+01 2fal a.1.1.2 15597 1q15A 503 2.77e+01 c.26.2.1,d.153.1.1 95538,95539 1mijA 152 2.82e+01 a.4.1.1 79150 2cxvA 219 2.83e+01 1auiB 169 2.87e+01 1auiB a.39.1.5 17325 2cr9A 139 2.92e+01 1tz0A 114 2.92e+01 d.58.4.5 107463 1uj8A 77 2.94e+01 1fcdA 401 2.96e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1l3kA 196 2.99e+01 d.58.7.1,d.58.7.1 73539,73540 1xtpA 254 3.04e+01 1kw4A 89 3.12e+01 a.60.1.2 73077 1vzsA 76 3.14e+01 f.45.1.1 108972 1sfkA 76 3.17e+01 a.190.1.1 105488 1wad 112 3.17e+01 3cyr a.138.1.1 19658 1vs0A 310 3.23e+01 1g2rA 100 3.24e+01 1g2rA d.192.1.1 60231 1rlmA 271 3.24e+01 1vlpA 441 3.26e+01 d.41.2.2,d.41.2.3 108840,108841 1yx1A 264 3.37e+01 2bayA 61 3.42e+01 2abqA 306 3.44e+01 1s5jA 847 3.45e+01 2fggA 101 3.45e+01 2f02A 323 3.52e+01 1w9aA 147 3.53e+01 2bycA 137 3.55e+01 1s9kD 53 3.58e+01 1ckmA 330 3.66e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 1lvoA 302 3.78e+01 b.47.1.4 74284 1woqA 267 3.79e+01 c.55.1.10,c.55.1.10 109462,109463 1tif 78 3.80e+01 1tif d.15.8.1 37836 1zavA 180 3.80e+01 1q60A 99 3.81e+01 1s62A 106 3.83e+01 2bkfA 87 3.83e+01 1yliA 153 3.86e+01 1u67A 600 3.87e+01 a.93.1.2,g.3.11.1 107697,107698 2bc4B 211 3.89e+01 1y8tA 324 3.93e+01 2b7kA 200 3.94e+01 1vpbA 451 3.97e+01 1i3zA 103 3.99e+01 d.93.1.1 83667 2a6tA 271 4.02e+01 1op4A 159 4.04e+01 b.1.6.1 93397 1vp7A 100 4.05e+01 1lfb 99 4.06e+01 1lfb a.4.1.1 15989 1vjlA 164 4.14e+01 d.257.1.1 100822 1t0fA 276 4.17e+01 1t5hX 504 4.22e+01 e.23.1.1 106449 1r5eA 115 4.24e+01 1ykhA 108 4.24e+01 1nepA 130 4.29e+01 b.1.18.7 80440 1gwiA 411 4.34e+01 a.104.1.1 76364 1ts9A 102 4.35e+01 1vknA 351 4.36e+01 c.2.1.3,d.81.1.1 108676,108677 1xeqA 103 4.37e+01 1p5zB 263 4.42e+01 c.37.1.1 87815 1w7jB 151 4.43e+01 1pufB 73 4.47e+01 a.4.1.1 95132 1e7uA 961 4.49e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1uzeA 589 4.49e+01 d.92.1.5 108174 1t0qB 330 4.54e+01 a.25.1.2 106221 1em9A 154 4.57e+01 1d1dA a.73.1.1 18333 2fdsA 352 4.59e+01 2d1uA 104 4.63e+01 2cs7A 55 4.67e+01 1yi8A 351 4.67e+01 1vddA 228 4.67e+01 e.49.1.1 108519 1r26A 125 4.68e+01 c.47.1.1 96847 1s69A 124 4.69e+01 a.1.1.1 105305 1mdbA 539 4.69e+01 e.23.1.1 79008 2rmcA 182 4.72e+01 2cpl b.62.1.1 27491 1t4nA 94 4.73e+01 d.50.1.1 106424 1xewX 182 4.81e+01 2bh8A 101 4.82e+01 1ik9A 213 4.82e+01 b.59.1.1,h.1.11.1 66176,66177 1zzoA 136 4.85e+01 1b5eA 246 4.86e+01 1b5eA d.117.1.1 41056 1vggA 161 4.87e+01 1hhnA 101 4.87e+01 1hhnA b.104.1.1 61043 1x4tA 92 4.89e+01 1xkpC 143 4.94e+01 2cbiA 594 4.98e+01 1o4rA 108 5.00e+01 d.93.1.1 92469 1wwpA 119 5.07e+01 1z5yE 149 5.09e+01 1t9iA 163 5.10e+01 1iirA 415 5.11e+01 1iirA c.87.1.5 62453 1l8dA 112 5.16e+01 h.4.12.1 73687 1q52A 314 5.16e+01 c.14.1.3 95846 1neiA 60 5.23e+01 d.253.1.1 91843 2gh1A 301 5.23e+01 1r2mA 71 5.25e+01 b.138.1.1 96871 1h7sA 365 5.29e+01 d.14.1.3,d.122.1.2 65705,65706 2gtrA 261 5.32e+01 1h3oB 76 5.34e+01 a.22.1.3 76645 1t2bA 397 5.35e+01 1xx1A 285 5.37e+01 2a4hA 126 5.39e+01 2cohA 202 5.39e+01 1yewA 382 5.43e+01 1u58A 253 5.45e+01 1h5wA 309 5.46e+01 e.27.1.1 65635 2aa4A 289 5.50e+01 1j1vA 94 5.51e+01 a.4.12.2 83981 1xg7A 250 5.52e+01 1v3wA 173 5.60e+01 b.81.1.5 100291 1l8wA 348 5.61e+01 a.154.1.1 73704 1g4yB 101 5.61e+01 1g4yB f.15.1.1 60251 2ffeA 311 5.62e+01 1x9zA 188 5.63e+01 1uw4B 248 5.63e+01 a.118.1.14 100072 1d2vC 466 5.70e+01 1mhlC 2fjlA 150 5.72e+01 1d9cA 121 5.73e+01 1d9cA a.26.1.3 16901 5pal 109 5.74e+01 1a75A a.39.1.4 17215 1rfeA 162 5.78e+01 1gw5S 142 5.81e+01 d.110.4.2 70633 1ji7A 89 5.83e+01 a.60.1.1 71682 1z00B 84 5.84e+01 2b20A 403 5.88e+01 2d00A 109 5.90e+01 1qrvA 73 5.92e+01 1cktA a.21.1.1 16425 1xbbA 291 5.93e+01 1b7yA 350 5.99e+01 1pysA d.104.1.1 40776 1szoA 257 6.01e+01 c.14.1.3 106164 1pyoB 105 6.05e+01 1pi1A 185 6.05e+01 a.29.7.1 94699 1cyx 205 6.09e+01 1cyx b.6.1.2 23023 1xd8A 289 6.10e+01 2a10A 125 6.11e+01 1zl8B 54 6.20e+01 2fy6A 143 6.20e+01 2dg5A 366 6.24e+01 2d4rA 147 6.32e+01 1g8iA 190 6.33e+01 1rec a.39.1.5 60363 1qwtA 255 6.34e+01 b.26.1.3 96501 1iapA 211 6.37e+01 a.91.1.1 62119 1wmwA 330 6.37e+01 1n1jB 97 6.42e+01 a.22.1.3 79814 1tqzA 133 6.51e+01 1m15A 357 6.59e+01 a.83.1.1,d.128.1.2 78368,78369 2cq8A 110 6.62e+01 1pzxA 289 6.64e+01 c.119.1.1 95484 1uqvA 85 6.65e+01 a.60.1.2 99798 1b7yB 785 6.68e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1n4xH 120 6.68e+01 b.1.1.1 85324 2acvA 463 6.77e+01 1b0nA 111 6.84e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 1rq6A 62 6.87e+01 1l6kA 77 6.96e+01 h.6.1.1 77724 1qgtA 149 6.98e+01 1qgtA a.62.1.1 18135 1pufA 77 7.00e+01 a.4.1.1 95131 2ethA 154 7.03e+01 1l9lA 74 7.05e+01 a.64.1.1 77827 1r4gA 53 7.09e+01 a.8.5.1 96996 1n55A 251 7.14e+01 c.1.1.1 80007 1kv5A 250 7.18e+01 c.1.1.1 73052 1k2xB 143 7.20e+01 1p4kA 295 7.20e+01 d.153.1.5 87772 1fcyA 236 7.21e+01 2lbd a.123.1.1 19282 2aq6A 147 7.23e+01 2a61A 145 7.25e+01 1dekA 241 7.28e+01 1dekA c.37.1.1 31842 1vlaA 150 7.29e+01 d.227.1.2 108735 1yg2A 179 7.29e+01 1w4vA 119 7.29e+01 1h6kA 757 7.30e+01 a.118.1.14,a.118.1.14,a.118.1.14 60675,60676,60677 1f3mA 80 7.35e+01 1f3mA j.66.1.1 46358 1wvqA 167 7.35e+01 1xweA 151 7.37e+01 2b97A 71 7.37e+01 1nlwB 76 7.38e+01 a.38.1.1 80634 1opjA 293 7.40e+01 d.144.1.7 87230 2chnA 716 7.40e+01 1iuqA 367 7.44e+01 c.112.1.1 90703 1ygmA 118 7.45e+01 1zud1 251 7.49e+01 1brwA 433 7.50e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1ci4A 89 7.52e+01 1qckA a.60.5.1 17970 1zxtA 76 7.60e+01 1gl2A 65 7.61e+01 h.1.15.1 65278 1g9oA 91 7.62e+01 1pdr b.36.1.1 60400 1guxA 218 7.63e+01 1guxA a.74.1.3 18388 1fi4A 416 7.64e+01 1fi4A d.14.1.5,d.58.26.2 59847,59848 2fsrA 195 7.68e+01 1z21A 112 7.69e+01 1ywfA 296 7.72e+01 2f51A 118 7.75e+01 1jr7A 311 7.76e+01 b.82.2.3 63255 1pcfA 66 7.78e+01 1pcfA d.18.1.1 38142 1jf3A 147 7.89e+01 a.1.1.2 71642 1xkpB 124 7.90e+01 2dh4A 340 7.90e+01 1gmjA 84 7.92e+01 h.4.8.1 65310 1inp 400 7.92e+01 1inp e.7.1.1 42972 1iarB 207 7.94e+01 1iarB b.1.2.1,b.1.2.1 22037,22038 1ky3A 182 7.96e+01 c.37.1.8 73193 1yzmA 51 7.96e+01 2f9sA 151 8.06e+01 1z6uA 150 8.11e+01 1am9A 82 8.18e+01 1am9A a.38.1.1 17140 1hw5A 210 8.23e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 1x2mA 64 8.33e+01 1xawA 140 8.40e+01 1st9A 143 8.42e+01 c.47.1.10 98987 2bl0C 142 8.43e+01 1vl4A 447 8.52e+01 d.283.1.1 108718 1r3jC 124 8.56e+01 f.14.1.1 96932 1xxlA 239 8.57e+01 1u6tA 121 8.60e+01 1mp9A 198 8.65e+01 d.129.1.1,d.129.1.1 91385,91386 2b3yA 888 8.72e+01 1k94A 165 8.74e+01 a.39.1.8 68333 1wlxA 129 8.76e+01 2ahrA 259 8.76e+01 1qx2A 76 8.80e+01 a.39.1.1 104622 1tc5A 194 8.82e+01 c.110.1.1 106752 1ib8A 164 8.90e+01 b.38.2.1,d.52.4.1 71168,71169 1xttA 216 8.91e+01 1xyiA 66 9.00e+01